Mitigating severe losses caused by pluvial floods in urban areas with dense population and property requires effective flood prediction for emergency measures. Physics-based models face issues with low computational efficiency for real‐time flood prediction. An alternative approach for rapid prediction instead of physics-based models is to predict from a data-driven perspective. However, data-driven approaches for urban flood prediction are often perceived as “black box” and might raise concerns. In this study, we propose an explainable deep learning (DL) approach for rapid urban pluvial flood prediction with enhanced transparency using a convolutional neural network (CNN) and the explainable artificial intelligence (AI) framework Shapley additive explanation (SHAP). We process a systematic stepwise feature selection process and establish a CNN model considering topography, drainage networks and rainfall to predict maximum inundation depths. Then, SHAP is applied to provide trustworthy explanations for the decision making in model results. The results show that: 1) Forward selection can offer insights into selecting effective input variables for improved predictions and promote understanding of DL modelling. The spatial pattern of inundation depths predicted by the proposed CNN model shows good agreement with those predicted by the physics-based model, demonstrated by average correlation coefficient (CC) and mean absolute error (MAE) values of 0.982 and 0.021 m, respectively. 2) The CNN model substantially outperforms the physics-based model in computational speed when using the same hardware, achieving speedups of 210 times on GPU and 51 times on CPU in the case study (575167 grid cells, 14.38 km2). Particularly, it can still achieve good performance on a CPU-only standard laptop without high-performance hardware, with only a modest increase in computational time. 3) The SHAP explainable analysis confirms that the CNN model correctly captures the relationships between input variables and water depth, revealing a reasonable decision-making process, enhancing its transparency. The explainable DL approach incorporating SHAP for rapid urban pluvial flood prediction is promising to build trust among stakeholders and provide a trustworthy reference for prompt measures aiming at saving lives and protecting assets during flood emergencies. Additionally, the proposed DL approach can potentially be further expanded to analyze the causes of urban flooding events and serve as a foundation for exploring the transferability of data-driven urban flood prediction, providing benefits for better urban flood risk management.